Lost in Benchmarks? Rethinking Large Language Model Benchmarking with Item Response Theory

The evaluation of large language models (LLMs) via benchmarks is widespread, yet inconsistencies between different leaderboards and poor separability among top models raise concerns about their ability to accurately reflect authentic model capabilities. This paper provides a critical analysis of benchmark effectiveness, examining main-stream prominent LLM benchmarks using results from diverse models. We first propose a new framework for accurate and reliable estimations of item characteristics and model abilities. Specifically, we propose Pseudo-Siamese Network for Item Response Theory (PSN-IRT), an enhanced Item Response Theory framework that incorporates a rich set of item parameters within an IRT-grounded architecture. Based on PSN-IRT, we conduct extensive analysis which reveals significant and varied shortcomings in the measurement quality of current benchmarks. Furthermore, we demonstrate that leveraging PSN-IRT is able to construct smaller benchmarks while maintaining stronger alignment with human preference.

scSiameseClu: A Siamese Clustering Framework for Interpreting single-cell RNA Sequencing Data

Single-cell RNA sequencing (scRNA-seq) reveals cell heterogeneity, with cell clustering playing a key role in identifying cell types and marker genes. Recent advances, especially graph neural networks (GNNs)-based methods, have significantly improved clustering performance. However, the analysis of scRNA-seq data remains challenging due to noise, sparsity, and high dimensionality. Compounding these challenges, GNNs often suffer from over-smoothing, limiting their ability to capture complex biological information. In response, we propose scSiameseClu, a novel Siamese Clustering framework for interpreting single-cell RNA-seq data, comprising of 3 key steps: (1) Dual Augmentation Module, which applies biologically informed perturbations to the gene expression matrix and cell graph relationships to enhance representation robustness; (2) Siamese Fusion Module, which combines cross-correlation refinement and adaptive information fusion to capture complex cellular relationships while mitigating over-smoothing; and (3) Optimal Transport Clustering, which utilizes Sinkhorn distance to efficiently align cluster assignments with predefined proportions while maintaining balance. Comprehensive evaluations on seven real-world datasets demonstrate that~\methodname~outperforms state-of-the-art methods in single-cell clustering, cell type annotation, and cell type classification, providing a powerful tool for scRNA-seq data interpretation.

Interactive Instance Annotation with Siamese Networks

Annotating instance masks is time-consuming and labor-intensive. A promising solution is to predict contours using a deep learning model and then allow users to refine them. However, most existing methods focus on in-domain scenarios, limiting their effectiveness for cross-domain annotation tasks. In this paper, we propose SiamAnno, a framework inspired by the use of Siamese networks in object tracking. SiamAnno leverages one-shot learning to annotate previously unseen objects by taking a bounding box as input and predicting object boundaries, which can then be adjusted by annotators. Trained on one dataset and tested on another without fine-tuning, SiamAnno achieves state-of-the-art (SOTA) performance across multiple datasets, demonstrating its ability to handle domain and environment shifts in cross-domain tasks. We also provide more comprehensive results compared to previous work, establishing a strong baseline for future research. To our knowledge, SiamAnno is the first model to explore Siamese architecture for instance annotation.

GRAML: Dynamic Goal Recognition As Metric Learning

Goal Recognition (GR) is the problem of recognizing an agent's objectives based on observed actions. Recent data-driven approaches for GR alleviate the need for costly, manually crafted domain models. However, these approaches can only reason about a pre-defined set of goals, and time-consuming training is needed for new emerging goals. To keep this model-learning automated while enabling quick adaptation to new goals, this paper introduces GRAML: Goal Recognition As Metric Learning. GRAML uses a Siamese network to treat GR as a deep metric learning task, employing an RNN that learns a metric over an embedding space, where the embeddings for observation traces leading to different goals are distant, and embeddings of traces leading to the same goals are close. This metric is especially useful when adapting to new goals, even if given just one example observation trace per goal. Evaluated on a versatile set of environments, GRAML shows speed, flexibility, and runtime improvements over the state-of-the-art GR while maintaining accurate recognition.

DMS-Net:Dual-Modal Multi-Scale Siamese Network for Binocular Fundus Image Classification

Ophthalmic diseases pose a significant global health challenge, yet traditional diagnosis methods and existing single-eye deep learning approaches often fail to account for binocular pathological correlations. To address this, we propose DMS-Net, a dual-modal multi-scale Siamese network for binocular fundus image classification. Our framework leverages weight-shared Siamese ResNet-152 backbones to extract deep semantic features from paired fundus images. To tackle challenges such as lesion boundary ambiguity and scattered pathological distributions, we introduce a Multi-Scale Context-Aware Module (MSCAM) that integrates adaptive pooling and attention mechanisms for multi-resolution feature aggregation. Additionally, a Dual-Modal Feature Fusion (DMFF) module enhances cross-modal interaction through spatial-semantic recalibration and bidirectional attention, effectively combining global context and local edge features. Evaluated on the ODIR-5K dataset, DMS-Net achieves state-of-the-art performance with 80.5% accuracy, 86.1% recall, and 83.8% Cohen's kappa, demonstrating superior capability in detecting symmetric pathologies and advancing clinical decision-making for ocular diseases.

SonarT165: A Large-scale Benchmark and STFTrack Framework for Acoustic Object Tracking

Underwater observation systems typically integrate optical cameras and imaging sonar systems. When underwater visibility is insufficient, only sonar systems can provide stable data, which necessitates exploration of the underwater acoustic object tracking (UAOT) task. Previous studies have explored traditional methods and Siamese networks for UAOT. However, the absence of a unified evaluation benchmark has significantly constrained the value of these methods. To alleviate this limitation, we propose the first large-scale UAOT benchmark, SonarT165, comprising 165 square sequences, 165 fan sequences, and 205K high-quality annotations. Experimental results demonstrate that SonarT165 reveals limitations in current state-of-the-art SOT trackers. To address these limitations, we propose STFTrack, an efficient framework for acoustic object tracking. It includes two novel modules, a multi-view template fusion module (MTFM) and an optimal trajectory correction module (OTCM). The MTFM module integrates multi-view feature of both the original image and the binary image of the dynamic template, and introduces a cross-attention-like layer to fuse the spatio-temporal target representations. The OTCM module introduces the acoustic-response-equivalent pixel property and proposes normalized pixel brightness response scores, thereby suppressing suboptimal matches caused by inaccurate Kalman filter prediction boxes. To further improve the model feature, STFTrack introduces a acoustic image enhancement method and a Frequency Enhancement Module (FEM) into its tracking pipeline. Comprehensive experiments show the proposed STFTrack achieves state-of-the-art performance on the proposed benchmark. The code is available at https://github.com/LiYunfengLYF/SonarT165.

FGSGT: Saliency-Guided Siamese Network Tracker Based on Key Fine-Grained Feature Information for Thermal Infrared Target Tracking

Thermal infrared (TIR) images typically lack detailed features and have low contrast, making it challenging for conventional feature extraction models to capture discriminative target characteristics. As a result, trackers are often affected by interference from visually similar objects and are susceptible to tracking drift. To address these challenges, we propose a novel saliency-guided Siamese network tracker based on key fine-grained feature infor-mation. First, we introduce a fine-grained feature parallel learning convolu-tional block with a dual-stream architecture and convolutional kernels of varying sizes. This design captures essential global features from shallow layers, enhances feature diversity, and minimizes the loss of fine-grained in-formation typically encountered in residual connections. In addition, we propose a multi-layer fine-grained feature fusion module that uses bilinear matrix multiplication to effectively integrate features across both deep and shallow layers. Next, we introduce a Siamese residual refinement block that corrects saliency map prediction errors using residual learning. Combined with deep supervision, this mechanism progressively refines predictions, ap-plying supervision at each recursive step to ensure consistent improvements in accuracy. Finally, we present a saliency loss function to constrain the sali-ency predictions, directing the network to focus on highly discriminative fi-ne-grained features. Extensive experiment results demonstrate that the pro-posed tracker achieves the highest precision and success rates on the PTB-TIR and LSOTB-TIR benchmarks. It also achieves a top accuracy of 0.78 on the VOT-TIR 2015 benchmark and 0.75 on the VOT-TIR 2017 benchmark.

Siamese Network with Dual Attention for EEG-Driven Social Learning: Bridging the Human-Robot Gap in Long-Tail Autonomous Driving

Robots with wheeled, quadrupedal, or humanoid forms are increasingly integrated into built environments. However, unlike human social learning, they lack a critical pathway for intrinsic cognitive development, namely, learning from human feedback during interaction. To understand human ubiquitous observation, supervision, and shared control in dynamic and uncertain environments, this study presents a brain-computer interface (BCI) framework that enables classification of Electroencephalogram (EEG) signals to detect cognitively demanding and safety-critical events. As a timely and motivating co-robotic engineering application, we simulate a human-in-the-loop scenario to flag risky events in semi-autonomous robotic driving-representative of long-tail cases that pose persistent bottlenecks to the safety performance of smart mobility systems and robotic vehicles. Drawing on recent advances in few-shot learning, we propose a dual-attention Siamese convolutional network paired with Dynamic Time Warping Barycenter Averaging approach to generate robust EEG-encoded signal representations. Inverse source localization reveals activation in Broadman areas 4 and 9, indicating perception-action coupling during task-relevant mental imagery. The model achieves 80% classification accuracy under data-scarce conditions and exhibits a nearly 100% increase in the utility of salient features compared to state-of-the-art methods, as measured through integrated gradient attribution. Beyond performance, this study contributes to our understanding of the cognitive architecture required for BCI agents-particularly the role of attention and memory mechanisms-in categorizing diverse mental states and supporting both inter- and intra-subject adaptation. Overall, this research advances the development of cognitive robotics and socially guided learning for service robots in complex built environments.

ADT: Tuning Diffusion Models with Adversarial Supervision

Diffusion models have achieved outstanding image generation by reversing a forward noising process to approximate true data distributions. During training, these models predict diffusion scores from noised versions of true samples in a single forward pass, while inference requires iterative denoising starting from white noise. This training-inference divergences hinder the alignment between inference and training data distributions, due to potential prediction biases and cumulative error accumulation. To address this problem, we propose an intuitive but effective fine-tuning framework, called Adversarial Diffusion Tuning (ADT), by stimulating the inference process during optimization and aligning the final outputs with training data by adversarial supervision. Specifically, to achieve robust adversarial training, ADT features a siamese-network discriminator with a fixed pre-trained backbone and lightweight trainable parameters, incorporates an image-to-image sampling strategy to smooth discriminative difficulties, and preserves the original diffusion loss to prevent discriminator hacking. In addition, we carefully constrain the backward-flowing path for back-propagating gradients along the inference path without incurring memory overload or gradient explosion. Finally, extensive experiments on Stable Diffusion models (v1.5, XL, and v3), demonstrate that ADT significantly improves both distribution alignment and image quality.

Interpretable Deep Learning for Polar Mechanistic Reaction Prediction

Accurately predicting chemical reactions is essential for driving innovation in synthetic chemistry, with broad applications in medicine, manufacturing, and agriculture. At the same time, reaction prediction is a complex problem which can be both time-consuming and resource-intensive for chemists to solve. Deep learning methods offer an appealing solution by enabling high-throughput reaction prediction. However, many existing models are trained on the US Patent Office dataset and treat reactions as overall transformations: mapping reactants directly to products with limited interpretability or mechanistic insight. To address this, we introduce PMechRP (Polar Mechanistic Reaction Predictor), a system that trains machine learning models on the PMechDB dataset, which represents reactions as polar elementary steps that capture electron flow and mechanistic detail. To further expand model coverage and improve generalization, we augment PMechDB with a diverse set of combinatorially generated reactions. We train and compare a range of machine learning models, including transformer-based, graph-based, and two-step siamese architectures. Our best-performing approach was a hybrid model, which combines a 5-ensemble of Chemformer models with a two-step Siamese framework to leverage the accuracy of transformer architectures, while filtering away "alchemical" products using the two-step network predictions. For evaluation, we use a test split of the PMechDB dataset and additionally curate a human benchmark dataset consisting of complete mechanistic pathways extracted from an organic chemistry textbook. Our hybrid model achieves a top-10 accuracy of 94.9% on the PMechDB test set and a target recovery rate of 84.9% on the pathway dataset.